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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactttttgccaatttgatttcattttttaatcatgtagttctctgctgattagtatactatactgtcaatgaaattatagACTGCAAAAATCAATCAAGGAAATATAGCGCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTTAGGGACAGCAAACTTACCA

Basic information

species Glycine max
transcript GLYMA20G34970.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G34970.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G408308_T01 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------------------------------------------gtaactttttgccaatttgatttcattttttaatcatgtagttct-ctgctg--attagtatactatactgtcaatgaaatt------------atagACTGCAAAAATCAATCAAGGAAATATAGCGCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTTAGGGACAGCAAACTTACCA
                                                                                                    |||      | || |||||      | ||    |||| | || | |  |||  |  ||     | | |  |||||    ||            | |||| ||||||||||||||||| || |  ||  ||||| ||||||| ||||| ||||| ||||| ||||| ||||| || || |||||||||||||| || |
gtgtgttatgcaaccgattcatgtatgtttgtagcatctatgttttccaaacttccaattgcactctgaacaattcttttaagaagttgctctgtgtgtttaatagacagtcagtttgacactgatcttgccacatgaatttgtaccactgtcaaaagccacatgtgcgatcaatagtgttgctacttttttcacagACAGCAAAAATCAATCAAGGGAACACTGCTTTGAAGCGAGTGGTTGAGTCTATTGCTAATGGTGATTCCCATGTTCCATTCAGGGACAGCAAACTCACAA

upper sequence: GLYMA20G34970.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G150984_T02 (Zea mays), 3'ss of exon 3
--------------------------------------------------------------------------------------------------------------gtaactttttgccaatttgatttcat---tttttaatcatgtagttctctgctgat-tagtatactatactgtcaatgaaattatagACTGCAAAAATCAATCAAGGAAATATAGCGCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTTAGGGACAGCAAACTTACCA
                                                                                                                |  ||    |  || |     |||   ||| ||    |||      |  |   | |  |  |   |  ||  | |    | | |||| ||||||||||||||||| || |  ||  ||||| ||||||| ||||| ||||| ||||| ||||| ||||| || || |||||||||||||| || |
gtgtgttatgcaaccgattcctgtatgtttgtagcatctatgttttccaaacttccaattgcactctgaacaatacttttaagaagttgctctgtgtgtttaatagacagtcagtttgacactgatcttgccacatgaatttgtaccactgtcaaaagccacacgtgtgatcaatagtgttgctacttttttcacagACAGCAAAAATCAATCAAGGGAACACTGCTTTGAAGCGAGTGGTTGAGTCTATTGCTAATGGTGATTCCCATGTTCCATTCAGGGACAGCAAACTCACAA

upper sequence: GLYMA20G34970.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G029134_T01 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------------------------------------------------------------gtaact--ttttgccaatttgatttcattttttaatcatgtagttctctgctgattagtatactatactgtcaatgaaattatagACTGCAAAAATCAATCAAGGAAATATAGCGCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTTAGGGACAGCAAACTTACCA
                                                                                                                     |  |||  | ||||| | | || ||| |       |||       | |   |||| | ||     |  ||  | |    | | |||| | ||||||||||||||| || |  ||  ||||| ||||||| ||||| ||||| ||||| ||||| ||||| || || ||||||| |||||| || |
gtgtgttatgcaaccgattcctgtatgtttgtagcatctatgttttccaaacttccaattgcactctgaacaatacttttaagaagttgctctgtgtgtttaatagacagtcagtttgacactgatcttgcccaat-gaattcgtaccactgtcaaaagccacacgtgtgatcaata----gtgttgctacttttttcacagACAGAAAAAATCAATCAAGGGAACACTGCTTTGAAGCGAGTGGTTGAGTCTATTGCTAATGGTGATTCCCATGTTCCATTCAGGGACATCAAACTCACAA

upper sequence: GLYMA20G34970.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------------gtaactttttgccaatttgatttcattttttaatcatgtagttctctgctgattag------tatactatactgtcaatgaaattatagACTGCAAAAATCAATCAAGGAAATATAGCGCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTTAGGGACAGCAAACTTACCA
                                                 | |   | || |||     ||||   ||   | |  |||       |  |||| ||      ||   ||| ||         || | |||| | ||| ||||| || |||||||||||  |||| ||||| || |||||||| |||||||| ||||| |||||||| || || || |||||  | ||||
gtagaatgtgttgaaattctattattatatctttgagtatcagttgtttgcattgtatttccagcaccattttgcttaa-agttttgtttccgcttaatgatgagcagcgctaatgtatgcttctggcatgatcacagACAGGAAAGATCAACCAGGGAAATATAGCATTGAAAAGAGTAGTCGAGTCCATAGCAAATGGTGATTCTCATGTGCCGTTCAGAGATAGCAAGTTAACCA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|193353490|gb|FK319342.1|FK319342
EST:     CAGAAAATATTGAACAAGCCGGTCAAACTGGATTTGAGGCCAAAATGCAG                         ACTGCAAAAATCAATCAAGGAAATATAGCGCTGAAGAGAGTGGTGGAGTTC
genomic: CAGAAAATATTGAACAAGCCGGTCAAACTGGATTTGAGGCCAAAATGCAGgtaacttttt ... gaaattatagACTGCAAAAATCAATCAAGGAAATATAGCGCTGAAGAGAGTGGTGGAGT-C






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaatcatgtagttctctgctgattagtatactatactgtcaatgaaattatagACTGCAAAAATCAATCAAGGAAATATAGCGCTGAAGAGAGTGGTGGAGTCCATTGCAAATGGCGATTCACATGTGCCTTTTAGGGACAGCAAACTTACCA
                  tgctgat  putative branch site (score: 3)
                       attagtatactata  TA-rich tract